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pythonpackage.yml
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name: Python package
on:
push:
branches:
- master
pull_request:
branches:
- master
- docs
schedule:
- cron: "0 2 * * 1-5"
# to make bash use ~/.bashrc, see https://github.com/marketplace/actions/setup-miniconda#example-5-custom-installer
defaults:
run:
shell: bash -l {0}
concurrency:
group: ${{ github.ref }}
cancel-in-progress: true
jobs:
main:
env:
CACHE_NUMBER_COMPILE: 6
MAMBA_ROOT_PREFIX: /dev/shm/mambaroot
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
max-parallel: 12
matrix:
os: [ubuntu-latest, windows-latest, macOS-11]
python-version: [3.6, 3.7, 3.8, 3.9]
steps:
- name: disk space
if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }}
run: |
df -h
- uses: maxim-lobanov/setup-xcode@v1
# alternative would be to upgrade tapi to 1100.0.11, we can possibly remove this in the future
if: matrix.os == 'macOS-11'
with:
xcode-version: "13.2.1"
- uses: actions/checkout@v2
with:
submodules: true
- uses: actions/checkout@v2
if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }}
with:
repository: vaexio/vaex-enterprise
token: ${{ secrets.PAT_PULL_ENTERPRISE }}
path: vaex-enterprise
- name: install micromamba
uses: mamba-org/setup-micromamba@v1
with:
micromamba-version: 1.5.6-0
environment-name: vaex-dev
environment-file: ci/conda-env.yml
create-args: >-
python=${{ matrix.python-version }}
- name: Extra non-windows installs
if: matrix.os != 'windows-latest'
run: |
echo "not needed for now"
# - name: Extra windows installs
# if: matrix.os == 'windows-latest'
# run: |
# # not sure why, but the conda env is strange (old dask) if we put this constraint in the conda solver
# # also might solve scipy issues
# micromamba update scipy ipython dask
# micromamba install scipy=1.7.1
# - name: free disk space
# if: matrix.os == 'ubuntu-latest'
# run: |
# sudo swapoff -a
# sudo rm -f /swapfile
# sudo apt clean
# docker rmi $(docker image ls -aq)
# df -h
- name: Install OpenMP runtime (Mac-only)
if: matrix.os == 'macOS-11'
run: |
brew install libomp
- name: Cache compiled binaries
# this fails for this combination, leading to binaries filled with 0's
if: matrix.python-version != '3.6' || matrix.os != 'macOS-11'
id: cache-compiled-binaries
uses: actions/cache@v2
with:
path: |
packages/vaex-core/build/lib*/vaex/vaexfast*
packages/vaex-core/build/lib*/vaex/super*
key: ${{ runner.OS }}-${{ matrix.python-version }}-${{ hashFiles('packages/vaex-core/src/*') }}-${{ env.CACHE_NUMBER_COMPILE }}
- name: Fix cache timestamp
run: |
touch packages/vaex-core/build/lib*/vaex/vaexfast* || echo "ok to fail"
touch packages/vaex-core/build/lib*/vaex/super* || echo "ok to fail"
ls -alh packages/vaex-core/build/lib*/vaex/ || echo "ok to fail"
- name: Install vaex
run: |
pip install myst_parser
pip install -e . -v
# ./ci/03-install-vaex.sh micromamba
# - name: Install vaex-enterprise
# if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }}
# run: |
# cd vaex-enterprise
# micromamba install -c conda-forge distributed
# pip install ray
# pip install -e .
- name: Copy dll
if: (matrix.os == 'windows-latest')
uses: ./ci/actions/windll
- name: Build Python packages
run: |
mkdir dist
(cd packages/vaex-core && python setup.py bdist_wheel); cp packages/vaex-core/dist/* dist
(cd packages/vaex-graphql && python setup.py bdist_wheel); cp packages/vaex-graphql/dist/* dist
(cd packages/vaex-jupyter && python setup.py bdist_wheel); cp packages/vaex-jupyter/dist/* dist
(cd packages/vaex-ml && python setup.py bdist_wheel); cp packages/vaex-ml/dist/* dist
(cd packages/vaex-viz && python setup.py bdist_wheel); cp packages/vaex-viz/dist/* dist
(cd packages/vaex-astro && python setup.py bdist_wheel); cp packages/vaex-astro/dist/* dist
(cd packages/vaex-hdf5 && python setup.py bdist_wheel); cp packages/vaex-hdf5/dist/* dist
(cd packages/vaex-server && python setup.py bdist_wheel); cp packages/vaex-server/dist/* dist
(cd packages/vaex-meta && python setup.py bdist_wheel); cp packages/vaex-server/dist/* dist
- name: Upload builds
uses: actions/upload-artifact@v2
with:
name: dist-${{ github.run_number }}-${{ matrix.python-version }}-${{ matrix.os }}
path: ./dist
# - name: Lint with flake8
# run: |
# echo "soon"
# # pip install flake8
# # stop the build if there are Python syntax errors or undefined names
# # flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
# # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
# # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
- name: Install fixes for Python 3.6
if: matrix.python-version == '3.6'
run: |
# by default on 3.6 we get an old version, so manually upgrade
pip install gcsfs==0.8.0
- name: Install pytest-asyncio correct version
if: matrix.python-version != '3.10'
run: |
# 3.10 doesn't seem to work
pip install "pytest-asyncio<0.14"
- name: Test with pytest
run: |
./ci/04-run-test-suite.sh
- name: Test with pytest (with cache on)
if: matrix.python-version == '3.9' && matrix.os == 'ubuntu-latest'
run: |
VAEX_CACHE_RESULTS=1 ./ci/04-run-test-suite.sh
- name: Check ml spec
# no catboost for py39 and py37, xgboost fails on 3.6
if: matrix.python-version != '3.6' && matrix.python-version != '3.7' && matrix.python-version != '3.9' && matrix.os != 'windows-latest'
run: |
python -m vaex.ml.spec packages/vaex-ml/vaex/ml/spec_new.json
diff packages/vaex-ml/vaex/ml/spec_new.json packages/vaex-ml/vaex/ml/spec.json
# - name: Test with pytest (vaex-enterprise)
# if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && (matrix.os == 'ubuntu-latest') }}
# run: |
# py.test vaex-enterprise/tests --timeout=1000
- name: Test notebooks
if: matrix.os != 'windows-latest' && matrix.python-version != '3.6' && matrix.python-version != '3.7'
run: |
./ci/05-run-notebooks.sh
- name: Authenticate Google Cloud Platform
if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && !((matrix.os == 'windows-latest') || (matrix.os == 'macOS-11' && matrix.python-version == '3.6')) }}
uses: google-github-actions/setup-gcloud@v0
with:
project_id: ${{ secrets.GCP_PROJECT_ID_VAEX }}
service_account_key: ${{ secrets.GCP_SA_KEY_VAEX }}
export_default_credentials: true
- name: Test vaex-contrib
# do not run in a PR from someone else, skip windows, and osx+py36
if: ${{ (github.event.pull_request.head.repo.full_name == 'vaexio/vaex') && !((matrix.os == 'windows-latest') || (matrix.os == 'macOS-11' && matrix.python-version == '3.6')) }}
env:
PROJECT_ID: ${{ secrets.GCP_PROJECT_ID_VAEX }}
run: |
pip install -e 'packages/vaex-contrib[gcp]'
./ci/06-run-contrib-tests.sh
install:
runs-on: ${{ matrix.os }}
needs: [main]
strategy:
fail-fast: false
matrix:
os: [ubuntu-latest, windows-latest, macOS-11]
python-version: [3.7, 3.8, 3.9]
# ssl/certifi issues with this combination
exclude:
- os: windows-latest
python-version: 3.7
steps:
- uses: actions/checkout@v2
- uses: actions/download-artifact@v2
with:
name: dist-${{ github.run_number }}-${{ matrix.python-version }}-${{ matrix.os }}
path: ./dist
- name: Install micromamba
uses: mamba-org/setup-micromamba@v1
with:
micromamba-version: 1.5.6-0
environment-name: vaex-test
environment-file: ci/conda-base-minimal.yml
create-args: >-
python=${{ matrix.python-version }}
pcre
rich
# it shouldn't be needed to use pcre, maybe we should make the wheels similar to how we make distributions
- name: Cache pip
uses: actions/cache@v2
env:
# Increase this value to reset cache
CACHE_NUMBER: 0
with:
path: |
~/.cache/pip
key:
pip-${{ runner.os }}-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}
- name: Install core packages
run: |
pip install -vv dist/vaex*core* dist/vaex*hdf5*
- name: Test core import
run: |
python -c "import vaex; df = vaex.example()"
- name: Install all packages
run: |
pip install -vv dist/*
- name: Test import
run: |
python -c "import vaex; df = vaex.example()"
- name: Test comand line
run: |
vaex convert ~/.vaex/data/helmi-dezeeuw-2000-FeH-v2-10percent.hdf5 test.parquet
pip install rich
VAEX_PROGRESS_TYPE=rich vaex convert ~/.vaex/data/helmi-dezeeuw-2000-FeH-v2-10percent.hdf5 test.parquet
vaex settings yaml
vaex settings md
- name: Test server
if: matrix.os != 'windows-latest'
run: |
vaex server --add-example --port 9999&
- name: Wait for Vaex server
if: matrix.os != 'windows-latest'
uses: ifaxity/wait-on-action@v1
with:
resource: http-get://localhost:9999/hello
timeout: 5000
- name: Use the Vaex server
if: matrix.os != 'windows-latest'
run: |
python -c "import vaex; df = vaex.open('ws://localhost:9999/example'); df.x.sum()"
curl -i http://localhost:9999/histogram/example/x